If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ), 'gf_id' => 'HOM05D001021', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001021' ), 'data_identifier' => 'HOM05D001021', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001021', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p06290' => 'bna', 'A02p01030' => 'bna', 'A02p05640' => 'bna', 'A03p05070' => 'bna', 'A03p61170' => 'bna', 'A03p68080' => 'bna', 'A04p23670' => 'bna', 'A05p14670' => 'bna', 'A09p13240' => 'bna', 'A09p15940' => 'bna', 'A10p20150' => 'bna', 'Aa31LG1G8690' => 'aar', 'Aa31LG2G18060' => 'aar', 'Aa31LG3G15680' => 'aar', 'Aa31LG5G5920' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2830' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.291' => 'aag', 'Actinidia11163' => 'ach', 'Actinidia11527' => 'ach', 'Actinidia13208' => 'ach', 'Actinidia13313' => 'ach', 'Actinidia14107' => 'ach', 'Actinidia14108' => 'ach', 'Actinidia29049' => 'ach', 'Actinidia31226' => 'ach', 'Actinidia31227' => 'ach', 'Ah.01g004960' => 'amhyb', 'Ah.09g231010' => 'amhyb', 'Ah.16g105310' => 'amhyb', 'AL2G12970' => 'aly', 'AL2G12990' => 'aly', 'AL4G26000' => 'aly', 'AL6G22190' => 'aly', 'AL6G31060' => 'aly', 'AL7G19900' => 'aly', 'Aqoxy4G00282' => 'aox', 'Aqoxy7G01602' => 'aox', 'Aqoxy7G03508' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0T6MFC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2N4ZV5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2QK23Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D6Z2R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6D88CF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8VD46W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Y8N9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E6P4EG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3QIGV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3XMJ8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W47R9J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YR2ABN' => 'arhy', 'AT1G62800' => 'ath', 'AT2G30970' => 'ath', 'AT4G31990' => 'ath', 'AT5G11520' => 'ath', 'AT5G19550' => 'ath', 'ATR0127G022' => 'atr', 'ATR0315G099' => 'atr', 'ATR0629G123' => 'atr', 'Atru.chr6.2765' => 'acertr', 'Atru.chr7.2151' => 'acertr', 'Atru.chr7.2152' => 'acertr', 'Atru.chr7.2508' => 'acertr', 'Atru.chr7.2509' => 'acertr', 'Atru.chr8.2369' => 'acertr', 'Atru.chr8.2371' => 'acertr', 'AUR62009324' => 'cqu', 'AUR62010964' => 'cqu', 'AUR62012452' => 'cqu', 'AUR62021474' => 'cqu', 'AUR62023011' => 'cqu', 'AUR62024050' => 'cqu', 'AUR62031576' => 'cqu', 'AUR62040441' => 'cqu', 'BcaB01g05478' => 'bca', 'BcaB02g10356' => 'bca', 'BcaB05g23390' => 'bca', 'BcaB06g28398' => 'bca', 'BcaB06g28468' => 'bca', 'BcaB07g31361' => 'bca', 'BcaC01g01397' => 'bca', 'BcaC02g07026' => 'bca', 'BcaC02g08505' => 'bca', 'BcaC02g10416' => 'bca', 'BcaC02g10418' => 'bca', 'BcaC02g11183' => 'bca', 'BcaC02g11184' => 'bca', 'BcaC03g13369' => 'bca', 'BcaC03g13686' => 'bca', 'BcaC04g22450' => 'bca', 'BcaC04g22746' => 'bca', 'BcaC04g24220' => 'bca', 'BcaC06g31913' => 'bca', 'BcaC09g51988' => 'bca', 'BcaNung01929' => 'bca', 'BcaNung01930' => 'bca', 'BcaNung03127' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p02310' => 'bna', 'BolC1t00690H' => 'bol', 'BolC2t06462H' => 'bol', 'BolC2t06965H' => 'bol', 'BolC3t13093H' => 'bol', 'BolC3t21477H' => 'bol', 'BolC4t23484H' => 'bol', 'BolC4t24445H' => 'bol', 'BolC4t26918H' => 'bol', 'BolC4t27515H' => 'bol', 'BolC7t46246H' => 'bol', 'BolC7t46351H' => 'bol', 'BolC9t54481H' => 'bol', 'BolC9t54828H' => 'bol', 'BolC9t58527H' => 'bol', 'BraA01t00596Z' => 'bra', 'BraA01t02662Z' => 'bra', 'BraA02t05516Z' => 'bra', 'BraA03t09841Z' => 'bra', 'BraA03t15037Z' => 'bra', 'BraA03t15155Z' => 'bra', 'BraA03t15161Z' => 'bra', 'BraA04t17893Z' => 'bra', 'BraA05t20396Z' => 'bra', 'BraA09t36972Z' => 'bra', 'BraA09t37230Z' => 'bra', 'BraA10t44088Z' => 'bra', 'C01p06930' => 'bna', 'C02p05080' => 'bna', 'C03p05800' => 'bna', 'C03p91590' => 'bna', 'C04p19520' => 'bna', 'C04p29120' => 'bna', 'C04p53630' => 'bna', 'C04p60120' => 'bna', 'C07p57870' => 'bna', 'C07p59030' => 'bna', 'C09p15730' => 'bna', 'C09p19200' => 'bna', 'C09p56700' => 'bna', 'CAN.G1360.20' => 'can', 'CAN.G21.32' => 'can', 'CAN.G476.12' => 'can', 'CAN.G6.30' => 'can', 'CAN.G604.2' => 'can', 'CANSAT25G1257' => 'cansat', 'CANSAT25G2285' => 'cansat', 'CANSAT25G2842' => 'cansat', 'CANSAT25G3687' => 'cansat', 'CANSAT35G0588' => 'cansat', 'CANSAT64G2429' => 'cansat', 'CARHR111660' => 'chi', 'CARHR124490' => 'chi', 'CARHR193350' => 'chi', 'CARHR201700' => 'chi', 'CARHR239890' => 'chi', 'Carub.0002s0218' => 'cru', 'Carub.0004s1219' => 'cru', 'Carub.0006s0998' => 'cru', 'Carub.0006s1790' => 'cru', 'Carub.0007s0856' => 'cru', 'Ca_13048_v3' => 'car', 'Ca_15615_v3' => 'car', 'Ca_18864_v3' => 'car', 'CBR_g16150' => 'cbr', 'CBR_g34329' => 'cbr', 'CBR_g44369' => 'cbr', 'CBR_g49643' => 'cbr', 'Cc05_g08500' => 'ccan', 'Cc06_g09870' => 'ccan', 'Cc08_g00120' => 'ccan', 'Cc08_g09040' => 'ccan', 'CDE02G2958' => 'cde', 'CDE04G0340' => 'cde', 'CDE04G2154' => 'cde', 'CDE08G0331' => 'cde', 'CDE12G0413' => 'cde', 'CDE12G0755' => 'cde', 'Cfa010610' => 'cfa', 'Cfa013093' => 'cfa', 'Cfa013348' => 'cfa', 'Cfa017064' => 'cfa', 'Cfa024813' => 'cfa', 'Cfa025322' => 'cfa', 'Ciclev10008224m.g' => 'ccl', 'Ciclev10008274m.g' => 'ccl', 'Ciclev10008489m.g' => 'ccl', 'Ciclev10010704m.g' => 'ccl', 'Ciclev10011760m.g' => 'ccl', 'Ciclev10015347m.g' => 'ccl', 'CiPaw.03G192400' => 'cil', 'CiPaw.04G134300' => 'cil', 'CiPaw.07G206600' => 'cil', 'CiPaw.07G227500' => 'cil', 'CiPaw.08G007800' => 'cil', 'CiPaw.08G024100' => 'cil', 'CiPaw.10G163700' => 'cil', 'ClCG04G006510' => 'cla', 'ClCG07G002680' => 'cla', 'ClCG08G013590' => 'cla', 'ClCG11G014070' => 'cla', 'COL.COLO4_03715' => 'col', 'COL.COLO4_04281' => 'col', 'COL.COLO4_18688' => 'col', 'COL.COLO4_18689' => 'col', 'COL.COLO4_18928' => 'col', 'COL.COLO4_30001' => 'col', 'COL.COLO4_33607' => 'col', 'COL.COLO4_33659' => 'col', 'COL.COLO4_34840' => 'col', 'Cpa.g.sc23.88' => 'cpa', 'Cpa.g.sc52.159' => 'cpa', 'Cpa.g.sc532.4' => 'cpa', 'Cpa.g.sc78.75' => 'cpa', 'Cpa.g.sc86.22' => 'cpa', 'Cre02.g097900' => 'cre', 'Cre06.g257950' => 'cre', 'Cre09.g387726' => 'cre', 'CsaV3_1G013270' => 'csa', 'CsaV3_2G032340' => 'csa', 'CsaV3_3G047470' => 'csa', 'CsaV3_4G027010' => 'csa', 'CSS0015181' => 'camsi', 'CSS0017097' => 'camsi', 'CSS0019452' => 'camsi', 'CSS0023667' => 'camsi', 'CSS0031565' => 'camsi', 'CSS0041167' => 'camsi', 'DCAR_003005' => 'dca', 'DCAR_004493' => 'dca', 'DCAR_010455' => 'dca', 'DCAR_021296' => 'dca', 'Dinv03422' => 'din', 'Dinv06491' => 'din', 'Dinv11950' => 'din', 'Dinv12375' => 'din', 'Dinv14232' => 'din', 'Dinv25305' => 'din', 'Dinv30260' => 'din', 'Dinv36650' => 'din', 'Duzib114G0181' => 'dzi', 'Duzib150G0063' => 'dzi', 'Duzib150G0066' => 'dzi', 'Duzib151G0032' => 'dzi', 'Duzib168G0044' => 'dzi', 'Duzib168G1646' => 'dzi', 'Duzib187G0472' => 'dzi', 'ECA233G0719' => 'eca', 'ECA234G0795' => 'eca', 'ECA234G1403' => 'eca', 'ECA246G4180' => 'eca', 'EL10Ac2g03274' => 'bvu', 'EL10Ac2g04064' => 'bvu', 'EL10Ac2g04148' => 'bvu', 'EL10Ac5g11552' => 'bvu', 'EL10Ac8g18450' => 'bvu', 'EL10Ac9g20980' => 'bvu', 'Eucgr.A01927' => 'egr', 'Eucgr.C01585' => 'egr', 'Eucgr.C01588' => 'egr', 'Eucgr.C02720' => 'egr', 'Eucgr.C02721' => 'egr', 'Eucgr.C02894' => 'egr', 'Eucgr.K01272' => 'egr', 'FAN09G2104' => 'fan', 'FAN14G2980' => 'fan', 'FAN15G0140' => 'fan', 'FAN15G0541' => 'fan', 'FAN15G2880' => 'fan', 'FAN20G0577' => 'fan', 'FAN20G2878' => 'fan', 'FAN27G0347' => 'fan', 'FAN27G2059' => 'fan', 'FAN27G2611' => 'fan', 'FvH4_2g36020' => 'fve', 'FvH4_2g36030' => 'fve', 'FvH4_2g40770' => 'fve', 'FvH4_6g27650' => 'fve', 'Glyma.01G131100' => 'gma', 'Glyma.03G037609' => 'gma', 'Glyma.04G080700' => 'gma', 'Glyma.06G082400' => 'gma', 'Glyma.06G275700' => 'gma', 'Glyma.14G111800' => 'gma', 'Glyma.17G216000' => 'gma', 'Glyma.20G051000' => 'gma', 'Gohir.A05G057300' => 'ghi', 'Gohir.A06G063900' => 'ghi', 'Gohir.A06G100300' => 'ghi', 'Gohir.A07G023400' => 'ghi', 'Gohir.A07G023500' => 'ghi', 'Gohir.A09G003700' => 'ghi', 'Gohir.A10G149066' => 'ghi', 'Gohir.A10G149132' => 'ghi', 'Gohir.D05G059400' => 'ghi', 'Gohir.D06G062600' => 'ghi', 'Gohir.D06G102400' => 'ghi', 'Gohir.D07G027000' => 'ghi', 'Gohir.D07G027100' => 'ghi', 'Gohir.D09G003300' => 'ghi', 'Gohir.D10G117701' => 'ghi', 'Gorai.001G028000' => 'gra', 'Gorai.001G028100' => 'gra', 'Gorai.006G004600' => 'gra', 'Gorai.009G060500' => 'gra', 'Gorai.010G072900' => 'gra', 'Gorai.010G117400' => 'gra', 'Gorai.011G129600' => 'gra', 'GSVIVG01015367001' => 'vvi', 'GSVIVG01017971001' => 'vvi', 'GSVIVG01020739001' => 'vvi', 'GSVIVG01030218001' => 'vvi', 'GSVIVG01035662001' => 'vvi', 'GSVIVG01035914001' => 'vvi', 'HanXRQChr01g0028611' => 'han', 'HanXRQChr02g0050121' => 'han', 'HanXRQChr08g0236121' => 'han', 'HanXRQChr09g0245531' => 'han', 'HanXRQChr12g0355551' => 'han', 'HanXRQChr13g0403701' => 'han', 'HanXRQChr17g0565401' => 'han', 'Haze_03543' => 'cav', 'Haze_13426' => 'cav', 'Haze_21137' => 'cav', 'Haze_21143' => 'cav', 'Haze_21450' => 'cav', 'Haze_21863' => 'cav', 'Haze_26343' => 'cav', 'Haze_26452' => 'cav', 'Hma1.2p1_0140F.1_g063470' => 'hma', 'Hma1.2p1_0178F.1_g078600' => 'hma', 'Hma1.2p1_0392F.1_g142930' => 'hma', 'HPP92_008150' => 'vpl', 'HPP92_018515' => 'vpl', 'HPP92_024048' => 'vpl', 'HPP92_024052' => 'vpl', 'Hund03437' => 'sun', 'Hund03475' => 'sun', 'Hund07772' => 'sun', 'Hund09217' => 'sun', 'Lalb_Chr01g0006031' => 'lal', 'Lalb_Chr07g0190711' => 'lal', 'Lalb_Chr11g0064391' => 'lal', 'Lalb_Chr11g0064401' => 'lal', 'Lalb_Chr19g0134861' => 'lal', 'Lalb_Chr22g0361431' => 'lal', 'Lalb_Chr23g0269501' => 'lal', 'Lj1A678T28' => 'lonja', 'Lj1A678T29' => 'lonja', 'Lj1g0015562' => 'lja', 'Lj3g0006940' => 'lja', 'Lj3g0025413' => 'lja', 'Lj5g0012884' => 'lja', 'Lj7A706T42' => 'lonja', 'Lj7C653T15' => 'lonja', 'Lj7C729T7' => 'lonja', 'Lsat_1_v5_gn_2_111381' => 'lsa', 'Lsat_1_v5_gn_4_26660' => 'lsa', 'Lsat_1_v5_gn_5_103541' => 'lsa', 'Lsat_1_v5_gn_5_33281' => 'lsa', 'Lsat_1_v5_gn_6_18741' => 'lsa', 'Manes.01G130700' => 'mes', 'Manes.03G022400' => 'mes', 'Manes.03G061000' => 'mes', 'Manes.03G061100' => 'mes', 'Manes.08G172500' => 'mes', 'Manes.16G126700' => 'mes', 'Mapoly0001s0131' => 'mpo', 'Mapoly0015s0092' => 'mpo', 'Mapoly0016s0032' => 'mpo', 'Mapoly0088s0055' => 'mpo', 'Mapoly0088s0057' => 'mpo', 'Mapoly0088s0058' => 'mpo', 'Mapoly0148s0042' => 'mpo', 'MBI01_g07180_MAGBIO' => 'mbi', 'MBI07_g09552_MAGBIO' => 'mbi', 'MCO09G393' => 'mco', 'MD02G1161500' => 'mdo', 'MD08G1060300' => 'mdo', 'MD08G1117300' => 'mdo', 'MD08G1117400' => 'mdo', 'MD08G1117500' => 'mdo', 'MD10G1091500' => 'mdo', 'MD15G1036300' => 'mdo', 'MD15G1096900' => 'mdo', 'MD17G1264900' => 'mdo', 'Medtr1g013050' => 'mtr', 'Medtr3g110065' => 'mtr', 'Medtr4g014910' => 'mtr', 'Medtr4g080130' => 'mtr', 'Medtr4g080140' => 'mtr', 'MELO3C003577.2' => 'cme', 'MELO3C004980.2' => 'cme', 'MELO3C011284.2' => 'cme', 'MELO3C026051.2' => 'cme', 'Migut.A00003' => 'egut', 'Migut.E01514' => 'egut', 'Migut.H02142' => 'egut', 'Migut.K00507' => 'egut', 'MSTRG.12829' => 'ama', 'MSTRG.14014' => 'ama', 'MSTRG.14305' => 'ama', 'MSTRG.26034' => 'ama', 'MSTRG.26359' => 'ama', 'Nitab4.5_0000052g0220' => 'nta', 'Nitab4.5_0000097g0090' => 'nta', 'Nitab4.5_0000249g0160' => 'nta', 'Nitab4.5_0000486g0030' => 'nta', 'Nitab4.5_0002204g0060' => 'nta', 'Nitab4.5_0005681g0020' => 'nta', 'Nitab4.5_0007126g0030' => 'nta', 'Nitab4.5_0007794g0030' => 'nta', 'Nitab4.5_0009538g0010' => 'nta', 'Nitab4.5_0009811g0010' => 'nta', 'Nn1g04284' => 'nnu', 'Nn2g11096' => 'nnu', 'Nn2g11693' => 'nnu', 'Nn2g13332' => 'nnu', 'Nn3g18075' => 'nnu', 'Nn3g21128' => 'nnu', 'Nn8g39753' => 'nnu', 'Oeu011270.1' => 'oeu', 'Oeu012639.1' => 'oeu', 'Oeu053250.2' => 'oeu', 'Oeu056773.1' => 'oeu', 'Oeu064590.1' => 'oeu', 'Os01g0760600' => 'osa', 'Os02g0236000' => 'osa', 'Os02g0797500' => 'osa', 'Os06g0548000' => 'osa', 'Peaxi162Scf00116g00313' => 'pax', 'Peaxi162Scf00231g00332' => 'pax', 'Peaxi162Scf00469g00531' => 'pax', 'Peaxi162Scf00523g00015' => 'pax', 'Peaxi162Scf00595g00426' => 'pax', 'PGR004G2592' => 'pgr', 'PGR031G1721' => 'pgr', 'PGR031G2078' => 'pgr', 'PGR044G0269' => 'pgr', 'PGR044G0835' => 'pgr', 'PGR142G2042' => 'pgr', 'PGSC0003DMG400006678' => 'stu', 'PGSC0003DMG400010840' => 'stu', 'PGSC0003DMG400015637' => 'stu', 'PGSC0003DMG400020416' => 'stu', 'PGSC0003DMG400029897' => 'stu', 'Phvul.001G047001' => 'pvu', 'Phvul.009G106800' => 'pvu', 'Phvul.010G067200' => 'pvu', 'Phvul.011G127800' => 'pvu', 'Potri.006G107100' => 'ptr', 'Potri.006G241500' => 'ptr', 'Potri.006G241600' => 'ptr', 'Potri.006G260200' => 'ptr', 'Potri.014G143300' => 'ptr', 'Potri.018G022200' => 'ptr', 'Potri.018G082500' => 'ptr', 'Pp3c10_1870' => 'ppa', 'Pp3c12_5520' => 'ppa', 'Pp3c13_20420' => 'ppa', 'Pp3c15_12100' => 'ppa', 'Pp3c1_20690' => 'ppa', 'Pp3c21_13720' => 'ppa', 'Pp3c21_13723' => 'ppa', 'PRCOL_00002831' => 'pco', 'PRCOL_00003289' => 'pco', 'Prupe.1G390500' => 'ppe', 'Prupe.1G451800' => 'ppe', 'Prupe.1G451900' => 'ppe', 'Prupe.3G115000' => 'ppe', 'Psat5g022560' => 'psa', 'Psat6g028680' => 'psa', 'Psat7g164040' => 'psa', 'PSO017G0911' => 'pso', 'PSO063G1314' => 'pso', 'PSO170G2518' => 'pso', 'PSO210G1790' => 'pso', 'PSO210G5269' => 'pso', 'PSO384G1934' => 'pso', 'PSO566G0236' => 'pso', 'PSO782G2932' => 'pso', 'PSO782G5148' => 'pso', 'QL02p020044' => 'qlo', 'QL07p032803' => 'qlo', 'QL08p042224' => 'qlo', 'QL12p026611' => 'qlo', 'RcHm_v2.0_Chr2g0130551' => 'rch', 'RcHm_v2.0_Chr3g0470091' => 'rch', 'RcHm_v2.0_Chr6g0299821' => 'rch', 'RcHm_v2.0_Chr6g0305821' => 'rch', 'RcHm_v2.0_Chr6g0305831' => 'rch', 'Rhsim02G0181400' => 'rsi', 'Rhsim06G0130100' => 'rsi', 'Rhsim07G0162300' => 'rsi', 'Sabra06G0083300' => 'sbr', 'Sabra06G0188900' => 'sbr', 'Sabra06G0189000' => 'sbr', 'Sabra06G0203200' => 'sbr', 'Sabra14G0108300' => 'sbr', 'Sabra18G0070300' => 'sbr', 'SabraUnG0004900' => 'sbr', 'SalBow4G0104' => 'sbo', 'SalBow8G3685' => 'sbo', 'Sc08g0007600' => 'sci', 'Sc09g0009120' => 'sci', 'Sc12g0003640' => 'sci', 'Sc23g0006500' => 'sci', 'Sed0005655' => 'sed', 'Sed0006050' => 'sed', 'Sed0007080' => 'sed', 'Sed0007494' => 'sed', 'Sed0022267' => 'sed', 'SEGI_04114' => 'sgi', 'SEGI_08924' => 'sgi', 'SEGI_35209' => 'sgi', 'SGA_v2.0_scaffold169G38648' => 'sas', 'SGA_v2.0_scaffold4G02109' => 'sas', 'SGA_v2.0_scaffold64G22016' => 'sas', 'SHI18649' => 'shi', 'SMO147G0162' => 'smo', 'SMO240G0026' => 'smo', 'SMO340G0033' => 'smo', 'SMO352G0073' => 'smo', 'SMO364G0678' => 'smo', 'Solyc07g032740.4' => 'sly', 'Solyc07g055210.3' => 'sly', 'Solyc08g041870.3' => 'sly', 'Solyc08g068330.3' => 'sly', 'Solyc10g075170.3' => 'sly', 'Sopen07g016910' => 'spe', 'Sopen07g027020' => 'spe', 'Sopen08g012080' => 'spe', 'Sopen08g022180' => 'spe', 'Sopen10g027650' => 'spe', 'Sp2g01800' => 'spa', 'Sp2g01810' => 'spa', 'Sp4g13460' => 'spa', 'Sp6g24830' => 'spa', 'Sp6g32080' => 'spa', 'Sp7g29790' => 'spa', 'TAR383G0185' => 'tar', 'TAR383G0352' => 'tar', 'TAR623G1757' => 'tar', 'TAR624G0277' => 'tar', 'TAR626G0363' => 'tar', 'TAR627G0984' => 'tar', 'THA.LOC104799079' => 'tha', 'THA.LOC104799572' => 'tha', 'THA.LOC104800835' => 'tha', 'THA.LOC104804501' => 'tha', 'THA.LOC104806627' => 'tha', 'THA.LOC104806628' => 'tha', 'THA.LOC104808487' => 'tha', 'Thecc.01G153200' => 'tca', 'Thecc.04G155400' => 'tca', 'Thecc.09G018600' => 'tca', 'Thecc.09G040700' => 'tca', 'Thecc.09G040800' => 'tca', 'Thecc.09G107800' => 'tca', 'Thhalv10013515m.g' => 'esa', 'Thhalv10013703m.g' => 'esa', 'Thhalv10015824m.g' => 'esa', 'Thhalv10016690m.g' => 'esa', 'Thhalv10016781m.g' => 'esa', 'Thhalv10016910m.g' => 'esa', 'Thhalv10017631m.g' => 'esa', 'Thhalv10017723m.g' => 'esa', 'Thhalv10017805m.g' => 'esa', 'Thhalv10023500m.g' => 'esa', 'Thhalv10025142m.g' => 'esa', 'TPR.G1391' => 'tpr', 'TPR.G21966' => 'tpr', 'TPR.G28210' => 'tpr', 'TPR.G38865' => 'tpr', 'TWI32G1052' => 'twi', 'TWI32G1085' => 'twi', 'TWI32G1188' => 'twi', 'TWI34G0456' => 'twi', 'TWI34G0737' => 'twi', 'TWI53G1022' => 'twi', 'TWI59G0535' => 'twi', 'TWI63G1646' => 'twi', 'unitig_0.g2735' => 'ugi', 'unitig_32.g10891' => 'ugi', 'unitig_62.g23134' => 'ugi', 'unitig_748.g8262' => 'ugi', 'unitig_85.g27155' => 'ugi', 'unitig_85.g27378' => 'ugi', 'vmacro05147' => 'vma', 'vmacro11075' => 'vma', 'vmacro12385' => 'vma', 'VMungo0331G0166' => 'vmu', 'VMungo0647G0368' => 'vmu', 'VMungo1127G0221' => 'vmu', 'VMungo1309G0314' => 'vmu', 'Zm00001eb152450' => 'zma', 'Zm00001eb238900' => 'zma', 'Zm00001eb257910' => 'zma' ) $gf_id = 'HOM05D001021' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001021' ) $data_identifier = 'HOM05D001021' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 3, 'acertr' => (int) 7, 'cqu' => (int) 8, 'bca' => (int) 23, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 5, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'cbr' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 9, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 8, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 6, 'egr' => (int) 7, 'fan' => (int) 10, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 6, 'han' => (int) 7, 'cav' => (int) 8, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 7, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 7, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 3, 'sbr' => (int) 7, 'sbo' => (int) 2, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 6, 'esa' => (int) 11, 'tpr' => (int) 4, 'twi' => (int) 8, 'ugi' => (int) 6, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb257910' $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